Defining the assumptions underlying modeling of epistatic QTL using variance component methods

L. Ronnegard, R. Pong-Wong, O. Carlborg

Research output: Contribution to journalArticlepeer-review

Abstract / Description of output

Variance component models are commonly used to detect quantitative trait loci (QTL) in general pedigrees. The variance-covariance structure of the random QTL effect is given by the identity by descent (IBD) between genotypes. Epistatic effects have previously been modeled, both for unlinked and linked loci, as a random effect with a variance-covariance structure given by the Hadamard product between the IBD matrices of the direct QTL effects. In the original papers, the model was given but not derived. Here, we identify the underlying assumptions of this previously proposed model. It assumes that either an unlinked QTL or a fully informative marker (i.e., all marker alleles are unique in the base generation) is located between the loci. We discuss the need of developing a general algorithm to estimate the variance-covariance structure of the random epistatic effect for linked loci
Original languageUndefined/Unknown
Pages (from-to)421-425
Number of pages5
JournalJournal of Heredity
Publication statusPublished - 2008

Keywords / Materials (for Non-textual outputs)

  • genetics linkage analysis quantitative traits

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